Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	2,853,770	G→T	11.1%	S41I (AGT→ATT) ‡	PP_2506 →	membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	2,853,770	0	G	T	11.1%	123.8 / 5.0	43	S41I (AGT→ATT) ‡	PP_2506	membrane protein
Reads supporting (aligned to +/- strand):  ref base G (16/22);  new base T (2/3);  total (18/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01

ACCTCGAGTTAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGACCTCTCACGCCATCCATCG  >  NC_002947/2853623‑2853914                                                                                                                                                     |                                                                                                                                                 aCCTCGAGTTAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAg                                                                                                                                                  >  2:138532/1‑148 (MQ=255) aCCTCGAGTTAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGt                                                                                                                                                 >  5:5479/1‑149 (MQ=255)      gAGTTAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAg                                                                                                                                            >  8:113282/1‑149 (MQ=255)         ttAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCt                                                                                                                                         <  1:280125/149‑1 (MQ=255)            aGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGa                                                                                                                                       <  1:34762/148‑1 (MQ=255)            aGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGa                                                                                                                                       <  5:21002/148‑1 (MQ=255)              tCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAAAGGACACAACGACTTCACTGCTGATTTTACATAT‑AACCTGCTGCAATTGCTTGAGCCTGTGGCTGAGTAGGCGCCTGATc                                                                                                                                     >  8:307846/1‑148 (MQ=255)                 aGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATcaaca                                                                                                                                 <  7:113282/149‑1 (MQ=255)                      ttAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACtt                                                                                                                             <  7:288115/148‑1 (MQ=255)                          agTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATg                                                                                                                        >  1:131503/1‑149 (MQ=255)                                            tcGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGc                                                                                                        <  7:217826/147‑1 (MQ=255)                                            tcGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGATGAGTATCAGCCTGATCAACAACTTGCATGCCTTTTCCAGCTCAGCCg                                                                                                      >  3:147713/1‑149 (MQ=255)                                                   tttCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGAt                                                                                               >  5:159583/1‑149 (MQ=255)                                                         aaagtaaCTCACAAAGTTCCCGGATTGGACACTCCTTATTCACTTCTTATTTTCCAGAT‑CACCTTCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCgggg                                                                                          <  3:15344/143‑1 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGATACTCAGccacag                                                                                                                                      <  8:145783/96‑5 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGATACTCAGccacag                                                                                                                                      >  7:145783/1‑92 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGATACTCAGccaca                                                                                                                                       >  5:243326/1‑92 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGATACTCAGccaca                                                                                                                                       <  6:243326/95‑4 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGTCAGCTCAGCCGGGGCGATCGGGGAGACCATGt                                                                                 >  5:284676/1‑149 (MQ=255)                                                                 tCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGt                                                                                 <  7:307846/149‑1 (MQ=255)                                                                   acaAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTc                                                                                >  6:132242/1‑148 (MQ=255)                                                                     aaaGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAg                                                                                                                                                  <  8:316771/80‑1 (MQ=255)                                                                     aaaGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAg                                                                                                                                                  >  7:316771/1‑80 (MQ=255)                                                                     aaaGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGc                                                                                                                 <  1:48939/113‑1 (MQ=255)                                                                     aaaGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGc                                                                                                                 >  2:48939/1‑113 (MQ=255)                                                                              ggAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTc                                                                                                           <  8:335383/110‑1 (MQ=255)                                                                              ggAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTc                                                                                                           >  7:335383/1‑110 (MQ=255)                                                                                aaTGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTgg                                                                  <  3:260365/149‑1 (MQ=255)                                                                                 aTGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGc                                                                 <  1:138532/149‑1 (MQ=255)                                                                                  tGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGcc                                                                <  6:159583/149‑1 (MQ=255)                                                                                  tGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGcc                                                                <  6:5479/149‑1 (MQ=255)                                                                                     acacTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCaa                                                             >  7:76257/1‑149 (MQ=255)                                                                                                      ctgATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGcc                                             <  8:76257/148‑1 (MQ=255)                                                                                                        gATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGcctcc                                          >  7:199285/1‑149 (MQ=255)                                                                                                         aTTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGcctcc                                          <  1:35677/148‑1 (MQ=255)                                                                                                            ttCCAGATCCACTTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGcctccct                                        <  1:302125/148‑1 (MQ=255)                                                                                                               cAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGTCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTctgct                                   <  6:284676/149‑1 (MQ=255)                                                                                                               cAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTctgct                                   <  2:131503/149‑1 (MQ=255)                                                                                                                aGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTcc                                                        <  7:50727/127‑1 (MQ=255)                                                                                                                aGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTcc                                                        >  8:50727/1‑127 (MQ=255)                                                                                                                aGAT‑CACATGCTTCATTGGGTTGAGCCTGTGGCTGATTATCAGCCTGATCAACAACATGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGGCGATGGCGCCGCTGGCCCAACCTCCCGCAATCGGCCTCCCTcttctg                                  <  4:147713/149‑1 (MQ=255)                                                                                                                               aTTGGCTTGAGCCCGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGAc                    <  2:45046/149‑1 (MQ=255)                                                                                                                                    cTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATTGCGCCGCTGGCCCAACCTCCCGCATTCATCCTCCCTCTGCTTGTGCGAGCGATGACCtctc               <  6:335947/149‑1 (MQ=255)                                                                                                                                       gAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGACCTCTCACg            >  3:12239/1‑149 (MQ=255)                                                                                                                                       gAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGACCTCTCACg            >  3:7214/1‑149 (MQ=255)                                                                                                                                                  tGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGAGATCGGGGAGACAATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGACCTCTCACGCCATCCATCg  >  5:45012/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                 ACCTCGAGTTAAGTCAAGGTTTTAGAGTGGCGTCCAGACGCTCTCGCTGCTTTCGGAAACGAACTCACAAAGGACCCGGAATGGACACTCCGACTTCACTGCTGATTTTCCAGAT‑CACCTGCTGCATTGGCTTGAGCCTGTGGCTGAGTATCAGCCTGATCAACAACTTGCATGCCTTTGCCAGCTCAGCCGGGGCGATCGGGGAGACCATGTCGATGGCGCCGCTGGCCCAACCTCCCGCAATCAGCCTCCCTCTGCTGGTGCGAGCGATGACCTCTCACGCCATCCATCG  >  NC_002947/2853623‑2853914

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑